Welcome to TreeBASE

TreeBASE is a repository of phylogenetic information, specifically user-submitted phylogenetic
trees and the data used to generate them. TreeBASE accepts all kinds of phylogenetic data (e.g.,
trees of species, trees of populations, trees of genes) representing all biotic taxa. Data in
TreeBASE are exposed to the public if they are used in a publication that is in press or published
in a peer-reviewed scientific journal, book, conference proceedings, or thesis. Data used in
publications that are in preparation or in review can be submitted to TreeBASE but will not be
available to the public until they have passed peer review. Aside from the submitter, such data
are only available to the publication editors or reviewers using a special access URL. TreeBASE
is produced and governed by the The Phyloinformatics Research Foundation, Inc.

As of April 2014, TreeBASE contains data for 4,076 publications written by 8,777 different authors.
These studies analyzed 8,233 matrices and resulted in 12,817 trees with 761,460 taxon labels that mapped
to 104,593 distinct taxa.

The current release includes a host of new features and improvements over the previous TreeBASE prototype. New features include:

A mapping between taxon labels and taxonomic names in uBio and NCBI for improved normalization of names

The ability to visualize and edit trees using Phylowidget

The ability to search on tree topology

Persistent and resolvable URIs for data objects in TreeBASE (i.e. studies, trees, matrices) serve as both globally unique identification numbers and
resource locators. These can be included in articles and on researcher's websites, making access to TreeBASE data only a click away

Data are delivered in several serializations, including NEXUS
and NeXML

A special URL gives journal editors and reviewers anonymous advanced access to data

Programmatic access to the data using the PhyloWS API. Queries are expressed in
URLs using PhyloWS syntax and can return results in RDF as RSS 1.0 feeds, which means that users can set their favorite
RSS Reader to fetch all new TreeBASE studies that satisfy a particular query (e.g. return all studies published in "Systematic Biology,"
or return all trees that include "Homo sapiens," etc)